{"id":"https://openalex.org/W2731998311","doi":"https://doi.org/10.1145/3093338.3093390","title":"COSMIC2","display_name":"COSMIC2","publication_year":2017,"publication_date":"2017-07-05","ids":{"openalex":"https://openalex.org/W2731998311","doi":"https://doi.org/10.1145/3093338.3093390","mag":"2731998311"},"language":"en","primary_location":{"id":"doi:10.1145/3093338.3093390","is_oa":false,"landing_page_url":"https://doi.org/10.1145/3093338.3093390","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Practice and Experience in Advanced Research Computing 2017: Sustainability, Success and Impact","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5042263282","display_name":"Michael A. Cianfrocco","orcid":"https://orcid.org/0000-0002-2067-4999"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"M. A. Cianfrocco","raw_affiliation_strings":["Life Sciences Institute, Department of Biological Chemistry, Univeristy of Michigan, Ann Arbor, MI"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Life Sciences Institute, Department of Biological Chemistry, Univeristy of Michigan, Ann Arbor, MI","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5026876767","display_name":"Mona Wong-Barnum","orcid":null},"institutions":[{"id":"https://openalex.org/I181653535","display_name":"San Diego Supercomputer Center","ror":"https://ror.org/04mg3nk07","country_code":"US","type":"facility","lineage":["https://openalex.org/I181653535","https://openalex.org/I36258959"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"M. Wong-Barnum","raw_affiliation_strings":["San Diego Supercomputer Center, UCSD La Jolla, California"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"San Diego Supercomputer Center, UCSD La Jolla, California","institution_ids":["https://openalex.org/I181653535"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5058119340","display_name":"Choonhan Youn","orcid":null},"institutions":[{"id":"https://openalex.org/I181653535","display_name":"San Diego Supercomputer Center","ror":"https://ror.org/04mg3nk07","country_code":"US","type":"facility","lineage":["https://openalex.org/I181653535","https://openalex.org/I36258959"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"C. Youn","raw_affiliation_strings":["San Diego Supercomputer Center, UCSD La Jolla, California"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"San Diego Supercomputer Center, UCSD La Jolla, California","institution_ids":["https://openalex.org/I181653535"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5033257108","display_name":"Rick Wagner","orcid":"https://orcid.org/0000-0003-1291-5876"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"R. Wagner","raw_affiliation_strings":["Computation Institute, Univ. Chicago, Chicago, Illinois"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computation Institute, Univ. Chicago, Chicago, Illinois","institution_ids":[]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5011173483","display_name":"Andr\u00e9s E. Leschziner","orcid":"https://orcid.org/0000-0002-7732-7023"},"institutions":[{"id":"https://openalex.org/I36258959","display_name":"University of California San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"A. Leschziner","raw_affiliation_strings":["Department of Cellular & Molecular, Medicine, UCSD La Jolla, California"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Cellular & Molecular, Medicine, UCSD La Jolla, California","institution_ids":["https://openalex.org/I36258959"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":0.8974,"has_fulltext":false,"cited_by_count":159,"citation_normalized_percentile":{"value":0.73536568,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":100},"biblio":{"volume":null,"issue":null,"first_page":"1","last_page":"5"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9991000294685364,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9991000294685364,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10857","display_name":"Advanced Electron Microscopy Techniques and Applications","score":0.9990000128746033,"subfield":{"id":"https://openalex.org/subfields/1315","display_name":"Structural Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9932000041007996,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/cyberinfrastructure","display_name":"Cyberinfrastructure","score":0.8795431852340698},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7508347034454346},{"id":"https://openalex.org/keywords/workflow","display_name":"Workflow","score":0.6881672143936157},{"id":"https://openalex.org/keywords/gateway","display_name":"Gateway (web page)","score":0.6691703796386719},{"id":"https://openalex.org/keywords/workbench","display_name":"Workbench","score":0.6163467168807983},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.4926336407661438},{"id":"https://openalex.org/keywords/interface","display_name":"Interface (matter)","score":0.4329119026660919},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.3852260410785675},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.3685426414012909},{"id":"https://openalex.org/keywords/software-engineering","display_name":"Software engineering","score":0.35194987058639526},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.29458561539649963},{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.13068002462387085},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.11893624067306519}],"concepts":[{"id":"https://openalex.org/C2776397876","wikidata":"https://www.wikidata.org/wiki/Q1450531","display_name":"Cyberinfrastructure","level":2,"score":0.8795431852340698},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7508347034454346},{"id":"https://openalex.org/C177212765","wikidata":"https://www.wikidata.org/wiki/Q627335","display_name":"Workflow","level":2,"score":0.6881672143936157},{"id":"https://openalex.org/C2777710495","wikidata":"https://www.wikidata.org/wiki/Q5527195","display_name":"Gateway (web page)","level":2,"score":0.6691703796386719},{"id":"https://openalex.org/C2779145975","wikidata":"https://www.wikidata.org/wiki/Q347690","display_name":"Workbench","level":3,"score":0.6163467168807983},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.4926336407661438},{"id":"https://openalex.org/C113843644","wikidata":"https://www.wikidata.org/wiki/Q901882","display_name":"Interface (matter)","level":4,"score":0.4329119026660919},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.3852260410785675},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.3685426414012909},{"id":"https://openalex.org/C115903868","wikidata":"https://www.wikidata.org/wiki/Q80993","display_name":"Software engineering","level":1,"score":0.35194987058639526},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.29458561539649963},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.13068002462387085},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.11893624067306519},{"id":"https://openalex.org/C157915830","wikidata":"https://www.wikidata.org/wiki/Q2928001","display_name":"Bubble","level":2,"score":0.0},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.0},{"id":"https://openalex.org/C129307140","wikidata":"https://www.wikidata.org/wiki/Q6795880","display_name":"Maximum bubble pressure method","level":3,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1145/3093338.3093390","is_oa":false,"landing_page_url":"https://doi.org/10.1145/3093338.3093390","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Practice and Experience in Advanced Research Computing 2017: Sustainability, Success and Impact","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/9","score":0.6200000047683716,"display_name":"Industry, innovation and infrastructure"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320334800","display_name":"Research Committee, Aristotle University of Thessaloniki","ror":"https://ror.org/02j61yw88"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":8,"referenced_works":["https://openalex.org/W2015640878","https://openalex.org/W2028753645","https://openalex.org/W2043701535","https://openalex.org/W2051925784","https://openalex.org/W2104234755","https://openalex.org/W2212589734","https://openalex.org/W2592114463","https://openalex.org/W4230163252"],"related_works":["https://openalex.org/W273500195","https://openalex.org/W2043019925","https://openalex.org/W4236056781","https://openalex.org/W4399254454","https://openalex.org/W4293768956","https://openalex.org/W2773781927","https://openalex.org/W1999096178","https://openalex.org/W1982259280","https://openalex.org/W4361794984","https://openalex.org/W2792198850"],"abstract_inverted_index":{"1":[0],"Structural":[1],"biology":[2,60],"is":[3],"in":[4],"the":[5,17,40,84,101,125,148,193,204,218,227],"midst":[6],"of":[7,20,28,32,83,86,195,229],"a":[8,25,55,141,233],"revolution.":[9],"Instrumentation":[10],"and":[11,34,65,110,150,159,164,174,181,203,225],"software":[12],"improvements":[13],"have":[14,146],"allowed":[15],"for":[16,58,153,236],"full":[18],"realization":[19],"cryo-electron":[21],"microscopy":[22],"(cryo-EM)":[23],"as":[24,129],"tool":[26,57,235],"capable":[27],"determining":[29],"atomic":[30],"structures":[31,45],"protein":[33],"macromolecular":[35],"samples.":[36],"These":[37],"advances":[38],"open":[39],"door":[41],"to":[42,74,98,113,135,168,178,220,231],"solving":[43],"new":[44,72,92],"that":[46],"were":[47],"previously":[48],"unattainable,":[49],"which":[50],"will":[51,216],"soon":[52],"make":[53],"cryo-EM":[54,75,93,137,230],"ubiquitous":[56],"structural":[59,237],"worldwide,":[61],"serving":[62],"both":[63],"academic":[64],"commercial":[66],"purposes.":[67],"However,":[68],"despite":[69],"its":[70],"power,":[71],"users":[73,94],"face":[76],"significant":[77],"obstacles.":[78],"One":[79],"major":[80],"barrier":[81,219],"consists":[82],"handling":[85],"large":[87,175],"datasets":[88],"(10+":[89],"terabytes),":[90],"where":[91],"must":[95],"learn":[96],"how":[97],"interface":[99],"with":[100,108],"Linux":[102],"command":[103],"line":[104],"while":[105],"also":[106],"dealing":[107],"managing":[109],"submitting":[111],"jobs":[112],"high":[114,187,221],"performance":[115,188,222],"computing":[116,189,223],"resources.":[117],"To":[118],"address":[119],"this":[120,214],"barrier,":[121],"we":[122,145],"are":[123],"developing":[124],"COSMIC2":[126],"Science":[127,180,205],"Gateway":[128,206],"an":[130],"easy,":[131],"web-based,":[132],"science":[133],"gateway":[134,215],"simplify":[136],"data":[138],"analysis":[139],"using":[140],"standardized":[142],"workflow.":[143],"Specifically,":[144],"adapted":[147],"successful":[149],"mature":[151],"Cyberinfrastructure":[152],"Phylogenetic":[154],"Research":[155],"(CIPRES)":[156],"Workbench":[157],"[8]":[158],"integrated":[160],"Globus":[161,165],"Auth":[162],"[6]":[163],"Transfer":[166],"[7]":[167],"enable":[169],"federated":[170],"user":[171],"identity":[172],"management":[173],"dataset":[176],"transfers":[177],"Extreme":[179],"Engineering":[182],"Discovery":[183],"Environment's":[184],"(XSEDE)":[185],"[1]":[186],"(HPC)":[190],"systems.":[191],"With":[192],"support":[194],"XSEDE's":[196],"Extended":[197,210],"Collaborative":[198],"Support":[199,212],"Services":[200],"(ECSS)":[201],"[16]":[202],"Community":[207],"Institute's":[208],"(SGCI)":[209],"Developer":[211],"(EDS),":[213],"lower":[217],"tools":[224],"facilitate":[226],"growth":[228],"become":[232],"routine":[234],"biology.":[238]},"counts_by_year":[{"year":2026,"cited_by_count":7},{"year":2025,"cited_by_count":35},{"year":2024,"cited_by_count":46},{"year":2023,"cited_by_count":39},{"year":2022,"cited_by_count":17},{"year":2021,"cited_by_count":7},{"year":2020,"cited_by_count":6},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":1}],"updated_date":"2026-06-11T09:08:48.828518","created_date":"2017-07-14T00:00:00"}